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etetoolkit
80 / 100 · Low risk
Fine to try. Some of what it can do is expected: a coding skill usually runs build and test commands.
By anubhavg-icpl/vibe (GitHub) · coding · 13 stars · scanned at commit d51e7ac
Phylogenetic tree toolkit (ETE). Tree manipulation (Newick/NHX), evolutionary event detection, orthology/paralogy, NCBI taxonomy, visualization (PDF/SVG), for phylogenomics. Use when you need help with etetoolkit.
Works with any agent that supports SKILL.md skills.
What this skill can do
Runs commands on your computer
The author does not mention this. Expected for a coding skill.
Found in 68 places.
Show 17 more
- skills/sci-etetoolkit/SKILL.md, line 432
python scripts/tree_operations.py convert input.nw output.nw --in-format 0 --out-format 1 - skills/sci-etetoolkit/SKILL.md, line 542
uv pip install ete3 - skills/sci-etetoolkit/SKILL.md, line 554
brew install qt@5 - .claude/settings.json, line 9
"command": "sh -c 'exec node \"${CLAUDE_PROJECT_DIR:-.}/.claude/helpers/hook-handler.cjs\" pre-bash'", - .claude/settings.json, line 19
"command": "sh -c 'exec node \"${CLAUDE_PROJECT_DIR:-.}/.claude/helpers/hook-handler.cjs\" pre-edit'", - .claude/settings.json, line 31
"command": "sh -c 'exec node \"${CLAUDE_PROJECT_DIR:-.}/.claude/helpers/hook-handler.cjs\" post-edit'", - .claude/settings.json, line 41
"command": "sh -c 'exec node \"${CLAUDE_PROJECT_DIR:-.}/.claude/helpers/hook-handler.cjs\" post-bash'", - .claude/settings.json, line 52
"command": "sh -c 'exec node \"${CLAUDE_PROJECT_DIR:-.}/.claude/helpers/hook-handler.cjs\" route'", - .claude/settings.json, line 63
"command": "sh -c 'exec node \"${CLAUDE_PROJECT_DIR:-.}/.claude/helpers/hook-handler.cjs\" session-restore'", - .claude/settings.json, line 68
"command": "sh -c 'exec node \"${CLAUDE_PROJECT_DIR:-.}/.claude/helpers/auto-memory-hook.mjs\" import'", - .claude/settings.json, line 79
"command": "sh -c 'exec node \"${CLAUDE_PROJECT_DIR:-.}/.claude/helpers/hook-handler.cjs\" session-end'", - .claude/settings.json, line 90
"command": "sh -c 'exec node \"${CLAUDE_PROJECT_DIR:-.}/.claude/helpers/auto-memory-hook.mjs\" sync'", - .claude/settings.json, line 102
"command": "sh -c 'exec node \"${CLAUDE_PROJECT_DIR:-.}/.claude/helpers/hook-handler.cjs\" compact-manual'" - .claude/settings.json, line 106
"command": "sh -c 'exec node \"${CLAUDE_PROJECT_DIR:-.}/.claude/helpers/hook-handler.cjs\" session-end'", - .claude/settings.json, line 116
"command": "sh -c 'exec node \"${CLAUDE_PROJECT_DIR:-.}/.claude/helpers/hook-handler.cjs\" compact-auto'" - .claude/settings.json, line 120
"command": "sh -c 'exec node \"${CLAUDE_PROJECT_DIR:-.}/.claude/helpers/hook-handler.cjs\" session-end'", - .claude/settings.json, line 131
"command": "sh -c 'exec node \"${CLAUDE_PROJECT_DIR:-.}/.claude/helpers/hook-handler.cjs\" status'",
and 48 more places
Downloads and installs other software
The author does not mention this. It runs automatically when the plugin is installed.
Found in 20 places.
Show 17 more
- skills/sci-etetoolkit/SKILL.md, line 374
uv pip install ete3[gui] - skills/sci-etetoolkit/SKILL.md, line 542
uv pip install ete3 - skills/sci-etetoolkit/SKILL.md, line 545
uv pip install ete3[gui] - skills/sci-etetoolkit/SKILL.md, line 554
brew install qt@5 - skills/sci-etetoolkit/SKILL.md, line 557
sudo apt-get install python3-pyqt5 python3-pyqt5.qtsvg - skills/sci-etetoolkit/scripts/quick_visualize.py, line 16
print("Error: ete3 not installed. Install with: pip install ete3") - skills/sci-etetoolkit/scripts/tree_operations.py, line 20
print("Error: ete3 not installed. Install with: pip install ete3") - .claude/settings.json, line 166
"Bash(npx @claude-flow*)", - .claude/settings.json, line 167
"Bash(npx claude-flow*)", - .mcp.json, line 4
"command": "npx", - hooks/cmods/README.md, line 96
npx eslint --fix "$FILE" 2>/dev/null - hooks/cmods/post-edit-format.sh, line 29
npx prettier --write "$FILE" 2>/dev/null && FORMATTED=true - hooks/cmods/post-edit-format.sh, line 32
npx biome format --write "$FILE" 2>/dev/null && FORMATTED=true - hooks/cmods/post-edit-format.sh, line 80
npx prettier --write "$FILE" 2>/dev/null && FORMATTED=true - hooks/cmods/post-edit-format.sh, line 86
npx prettier --write "$FILE" 2>/dev/null && FORMATTED=true - hooks/cmods/pre-commit-lint.sh, line 38
echo "$files" | xargs npx eslint --max-warnings 0 2>/dev/null - hooks/hooks.json, line 106
"command": "#!/bin/bash\n# Run TypeScript check after editing TS files\ninput=$(cat)\nfile_path=$(echo \"$input\" | jq -r '.tool_input.file_path // \"\"')\n\nif
Install
Paste this into your terminal. It downloads exactly the version we scanned, not whatever is newest.
if [ -e ~/.agents/skills/'etetoolkit' ] || [ -L ~/.agents/skills/'etetoolkit' ]; then echo 'A skill folder named etetoolkit already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/anubhavg-icpl/vibe' "$d" && git -C "$d" checkout --quiet 'd51e7ac9a34111cd2e63daed83c2198f91570050' -- 'skills/sci-etetoolkit' && mkdir -p ~/.agents/skills && cp -R "$d"/'skills/sci-etetoolkit' ~/.agents/skills/'etetoolkit' && rm -rf "$d"; fi
Codex reads ~/.agents/skills directly. For Claude Code, Cursor, Copilot, Gemini CLI, Antigravity or OpenCode, also link it. For Claude Code: ln -s ~/.agents/skills/'etetoolkit' ~/.claude/skills/'etetoolkit' (other agents: ~/.cursor/skills, ~/.copilot/skills, ~/.gemini/skills, ~/.gemini/config/skills, ~/.config/opencode/skills). Or install through the finder skill, which does both.
Badge for your README
The badge for anubhavg-icpl/vibe shows the score of its lowest-scoring skill.
[](https://zalavijaysinh.github.io/skilltrust/repos/anubhavg-icpl/vibe/)
Score history
| Date | Version | Score |
|---|
| 2026-11-08 | d51e7ac | 80 |